Skip to content

Commit cb96705

Browse files
committed
Merge branch 'documentation-devel' of https://github.com/pachterlab/voyager into documentation-devel
2 parents d9a9f5c + d88848b commit cb96705

32 files changed

+1666
-1666
lines changed

vignettes/bivariate.ipynb

+49-49
Large diffs are not rendered by default.

vignettes/create_sfe.ipynb

+45-45
Large diffs are not rendered by default.

vignettes/create_sfe_v2.ipynb

+18-18
Original file line numberDiff line numberDiff line change
@@ -2,7 +2,7 @@
22
"cells": [
33
{
44
"cell_type": "raw",
5-
"id": "22aa3a6b",
5+
"id": "13791cc6",
66
"metadata": {},
77
"source": [
88
"---\n",
@@ -26,7 +26,7 @@
2626
{
2727
"cell_type": "code",
2828
"execution_count": null,
29-
"id": "de365a2a",
29+
"id": "03c706da",
3030
"metadata": {
3131
"tags": [
3232
"remove_cell"
@@ -44,7 +44,7 @@
4444
{
4545
"cell_type": "code",
4646
"execution_count": null,
47-
"id": "8523ec05",
47+
"id": "01b9f3c1",
4848
"metadata": {
4949
"eval": false,
5050
"tags": [
@@ -85,7 +85,7 @@
8585
{
8686
"cell_type": "code",
8787
"execution_count": null,
88-
"id": "0f0631ae",
88+
"id": "e44b2dfa",
8989
"metadata": {
9090
"lines_to_next_cell": 0,
9191
"name": "setup"
@@ -103,7 +103,7 @@
103103
},
104104
{
105105
"cell_type": "markdown",
106-
"id": "7e43bb6d",
106+
"id": "acd9bc7d",
107107
"metadata": {},
108108
"source": [
109109
"## Downloading the data\n",
@@ -116,7 +116,7 @@
116116
{
117117
"cell_type": "code",
118118
"execution_count": null,
119-
"id": "1d7c889b",
119+
"id": "33a6d29f",
120120
"metadata": {
121121
"lines_to_next_cell": 0
122122
},
@@ -128,7 +128,7 @@
128128
},
129129
{
130130
"cell_type": "markdown",
131-
"id": "5af2e7d9",
131+
"id": "c88e99e6",
132132
"metadata": {
133133
"lines_to_next_cell": 0
134134
},
@@ -141,7 +141,7 @@
141141
{
142142
"cell_type": "code",
143143
"execution_count": null,
144-
"id": "2014a5c5",
144+
"id": "b7826dc8",
145145
"metadata": {
146146
"lines_to_next_cell": 0
147147
},
@@ -156,7 +156,7 @@
156156
},
157157
{
158158
"cell_type": "markdown",
159-
"id": "db84994b",
159+
"id": "b8c4b846",
160160
"metadata": {
161161
"lines_to_next_cell": 0
162162
},
@@ -167,7 +167,7 @@
167167
{
168168
"cell_type": "code",
169169
"execution_count": null,
170-
"id": "6910b053",
170+
"id": "3042c730",
171171
"metadata": {
172172
"lines_to_next_cell": 0
173173
},
@@ -180,7 +180,7 @@
180180
},
181181
{
182182
"cell_type": "markdown",
183-
"id": "c7baabe0",
183+
"id": "84cd0560",
184184
"metadata": {
185185
"lines_to_next_cell": 0
186186
},
@@ -192,7 +192,7 @@
192192
{
193193
"cell_type": "code",
194194
"execution_count": null,
195-
"id": "17022b20",
195+
"id": "3dbed538",
196196
"metadata": {
197197
"lines_to_next_cell": 0
198198
},
@@ -210,7 +210,7 @@
210210
},
211211
{
212212
"cell_type": "markdown",
213-
"id": "7a7ea6b2",
213+
"id": "942e3c7a",
214214
"metadata": {},
215215
"source": [
216216
"Here, spot locations are provided as a CSV file. There are two columns of particular interest, namely `xcoord` and `ycoord`. The barcode column corresponds to the barcodes in the count matrix. Before calling the `SpatialFeatureExperiment` constructor, the spatial coordinates must be converted to a `sf` data frame using `df2sf()`. The coordinates are centroid positions, so we will indicate that `geometryType=\"POINT\"`. "
@@ -219,7 +219,7 @@
219219
{
220220
"cell_type": "code",
221221
"execution_count": null,
222-
"id": "1cd10680",
222+
"id": "14f8f59c",
223223
"metadata": {
224224
"lines_to_next_cell": 0
225225
},
@@ -234,7 +234,7 @@
234234
},
235235
{
236236
"cell_type": "markdown",
237-
"id": "534d2b91",
237+
"id": "b1222ade",
238238
"metadata": {
239239
"lines_to_next_cell": 0
240240
},
@@ -245,7 +245,7 @@
245245
{
246246
"cell_type": "code",
247247
"execution_count": null,
248-
"id": "870ff045",
248+
"id": "727adcba",
249249
"metadata": {
250250
"lines_to_next_cell": 0
251251
},
@@ -261,7 +261,7 @@
261261
},
262262
{
263263
"cell_type": "markdown",
264-
"id": "68756f81",
264+
"id": "f8184354",
265265
"metadata": {
266266
"lines_to_next_cell": 0
267267
},
@@ -272,7 +272,7 @@
272272
{
273273
"cell_type": "code",
274274
"execution_count": null,
275-
"id": "d74bad63",
275+
"id": "9ba81c76",
276276
"metadata": {},
277277
"outputs": [],
278278
"source": [

0 commit comments

Comments
 (0)